Genetics, Vol. 168, 677-686, October 2004, Copyright © 2004
doi:10.1534/genetics.104.034843

Deletion Mapping of Homoeologous Group 6-Specific Wheat Expressed Sequence Tags

H. S. Randhawa^*,1, M. Dilbirligi^*,1, D. Sidhu^*, M. Erayman^*, D. Sandhu^*,2, S. Bondareva^*, S. Chao^,3, G. R. Lazo, O. D. Anderson, Miftahudin, J. P. Gustafson^¶, B. Echalier^&, L. L. Qi^&, B. S. Gill^&, E. D. Akhunov^**, J. Dvoák^**, A. M. Linkiewicz^**,4, A. Ratnasiri^**, J. Dubcovsky^**, C. E. Bermudez-Kandianis, R. A. Greene, M. E. Sorrells, E. J. Conley, J. A. Anderson, J. H. Peng, N. L. V. Lapitan, K. G. Hossain^¶¶, V. Kalavacharla^¶¶, S. F. Kianian^¶¶, M. S. Pathan, H. T. Nguyen, T. R. Endo^&&, T. J. Close^***, P. E. McGuire, C. O. Qualset and K. S. Gill^*,5

^* Department of Crop and Soil Sciences, Washington State University, Pullman, Washington 99164-6420
Genetic Resources Conservation Program, University of California, Davis, California 95616
USDA-ARS Western Regional Research Center, Albany, California 94710-1105
Department of Agronomy, University of Missouri, Columbia, Missouri 65211
^¶ USDA-ARS Plant Genetics Research Unit, Department of Agronomy, University of Missouri, Columbia, Missouri 65211
^& Department of Plant Pathology, Wheat Genetics Resource Center, Kansas State University, Manhattan, Kansas 66506-5502
^** Department of Agronomy and Range Science, University of California, Davis, California 95616
Department of Plant Breeding, Cornell University, Ithaca, New York 14853
Department of Agronomy and Plant Genetics, University of Minnesota, St Paul, Minnesota 55108
Department of Soil and Crop Sciences, Colorado State University, Fort Collins, Colorado 80523-1170
^¶¶ Department of Plant Sciences, North Dakota State University, Fargo, North Dakota 58105
^&& Kyoto University, Kyoto, 606, Japan
^*** Department of Botany and Plant Sciences, University of California, Riverside, California 92521

⁵ Corresponding author: Department of Crop and Soil Sciences, 277 Johnson Hall, P.O. Box 646420, Washington State University, Pullman, WA 99164.
E-mail: ksgill{at}wsu.edu

To localize wheat (Triticum aestivum L.) ESTs on chromosomes, 882 homoeologous group 6-specific ESTs were identified by physically mapping 7965 singletons from 37 cDNA libraries on 146 chromosome, arm, and sub-arm aneuploid and deletion stocks. The 882 ESTs were physically mapped to 25 regions (bins) flanked by 23 deletion breakpoints. Of the 5154 restriction fragments detected by 882 ESTs, 2043 (loci) were localized to group 6 chromosomes and 806 were mapped on other chromosome groups. The number of loci mapped was greatest on chromosome 6B and least on 6D. The 264 ESTs that detected orthologous loci on all three homoeologs using one restriction enzyme were used to construct a consensus physical map. The physical distribution of ESTs was uneven on chromosomes with a tendency toward higher densities in the distal halves of chromosome arms. About 43% of the wheat group 6 ESTs identified rice homologs upon comparisons of genome sequences. Fifty-eight percent of these ESTs were present on rice chromosome 2 and the remaining were on other rice chromosomes. Even within the group 6 bins, rice chromosomal blocks identified by 1–6 wheat ESTs were homologous to up to 11 rice chromosomes. These rice-block contigs were used to resolve the order of wheat ESTs within each bin.

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